BtaINT0031240 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010230 | CAPN1
Description
Bos taurus calpain 1, (mu/I) large subunit (CAPN1), mRNA. [Source:RefSeq mRNA;Acc:NM_174259]
Coordinates
chr29:44087396-44087945:+
Coord C1 exon
chr29:44087396-44087460
Coord A exon
chr29:44087461-44087876
Coord C2 exon
chr29:44087877-44087945
Length
416 bp
Sequences
Splice sites
5' ss Seq
GATGTATCC
5' ss Score
1.64
3' ss Seq
TCTTCTTAACGGCCGCCCAGCGC
3' ss Score
2.42
Exon sequences
Seq C1 exon
ACAAAGACCTGCGGACCACGGGCTTCAGCCTGGAGTCCTGCCGCAGCATGGTCAACCTCATGGAT
Seq A exon
GTATCCTCCTGAGCAGGGCCCGGGGTTGGGTTGTCAGCATAGGAAGGGCTTGGGTTGGGATGTCGGCAGAGGAAGGGCTCTGGGTGACCTGTCCCAAGAGCAGGGAAAGGGACAGATGTGGACAGGCCAGTTCCTTCCTGGCATCCTCCCCTTGACTGGGGGGAAAACCGAGGCGCAGGGCTGTGTCAAGTGACGGGGGAGGGCCTCGTCTACAGGTGACCCTAAGGCTGGCACTCAGAGAACACCCCTCCCAGCCTACCCCAATTCAGGCCTGGCTTTGGGCAGCTCCTGCAGCTTCTCCCCTCCCCTACCTCGGGTTTCTCTCCACGGCCAGTCTTTCCTCCCCTCAGTGCTCAGTACTCACTCACCCAGCGTCTGGTTTACGCTGTGGAGTTTTCTTCTTAACGGCCGCCCAG
Seq C2 exon
CGCGACGGCAATGGCAAACTGGGCCTGGTGGAGTTCAACATCCTATGGAACCGGATCCGGAATTACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010230:ENSBTAT00000011678:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=FE(34.4=100)
A:
NA
C2:
PF138331=EF-hand_8=PD(29.5=78.3),PF134991=EF-hand_7=PU(5.5=21.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]